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Conserved domains on  [gi|258613898|ref|NP_941054|]
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Holliday junction recognition protein isoform 1 [Mus musculus]

Protein Classification

myocyte-specific enhancer factor 2( domain architecture ID 10574614)

myocyte-specific enhancer factor 2 (MEF2) is a MADS (MCM1, AGAMOUS, DEFICIENS, and SRF, serum response factor) domain transcription factor, such as human MEF2A, a transcription activator which binds specifically to the MEF2 element present in the regulatory regions of many muscle-specific genes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HJURP_mid pfam12346
Holliday junction recognition protein-associated repeat; Vertebral Holliday junction ...
 254-370 2.34e-56

Holliday junction recognition protein-associated repeat; Vertebral Holliday junction recognition proteins carry an SCM3 domain at their N-terminus as do the eukaryotic fungi, but they also carry this central, conserved region. The function of this family is not known. Further downstream there is also a repeated domain, also of unknown function. Investigation of Scm3 and associated proteins is likely to be directly relevant to understanding the mechanism of HJURP-mediated CENP-A chromatin assembly at human centromeres.


:

Pssm-ID: 463542  Cd Length: 115  Bit Score: 186.91  E-value: 2.34e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 258613898  254 MSRLLRSKPSCIISTKTYINQSWKLRRRPsrKQGLHKNRTHCPRSKPSQRSARKGPASCSEPGKEAGILRDYGNLLHVAP 333
Cdd:pfam12346   1 MSRLLSAKPSCIISTKTFINQNWSSRRRH--RCKSRMNRTYCRGARPSQRSSRERPPPCSEPGKEAGVLRDCKNLLDVSC 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 258613898  334 HKTGLELKSVSLEGSKRQVHKSSPAWKELQMMPQKDL 370
Cdd:pfam12346  79 HKTGLKLEKAFLEVNKPQVHKLDPSWKELQVTPQKYS 115
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 385-446 3.49e-23

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


:

Pssm-ID: 463543  Cd Length: 63  Bit Score: 93.18  E-value: 3.49e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  385 WLISPVKVVPRPRM-LPSQVEKWYREIKIKFDKLHQEYCLSSGKQPRLTDPTESWAVDVYRSG 446
Cdd:pfam12347   1 KLISPVKAISRPRTeLPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 527-585 5.89e-17

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


:

Pssm-ID: 463543  Cd Length: 63  Bit Score: 75.46  E-value: 5.89e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  527 KAVWPSTAISAPSIGSPGCGKDNYDELKKEFNRLYQKYCLS----PQRAKVTSCGRVSPMKAA 585
Cdd:pfam12347   1 KLISPVKAISRPRTELPGRGENRYREIKEEFDKLHQEYCLSspkqPPNTKMPVSVAVSNYRAG 63
 
Name Accession Description Interval E-value
HJURP_mid pfam12346
Holliday junction recognition protein-associated repeat; Vertebral Holliday junction ...
 254-370 2.34e-56

Holliday junction recognition protein-associated repeat; Vertebral Holliday junction recognition proteins carry an SCM3 domain at their N-terminus as do the eukaryotic fungi, but they also carry this central, conserved region. The function of this family is not known. Further downstream there is also a repeated domain, also of unknown function. Investigation of Scm3 and associated proteins is likely to be directly relevant to understanding the mechanism of HJURP-mediated CENP-A chromatin assembly at human centromeres.


Pssm-ID: 463542  Cd Length: 115  Bit Score: 186.91  E-value: 2.34e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 258613898  254 MSRLLRSKPSCIISTKTYINQSWKLRRRPsrKQGLHKNRTHCPRSKPSQRSARKGPASCSEPGKEAGILRDYGNLLHVAP 333
Cdd:pfam12346   1 MSRLLSAKPSCIISTKTFINQNWSSRRRH--RCKSRMNRTYCRGARPSQRSSRERPPPCSEPGKEAGVLRDCKNLLDVSC 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 258613898  334 HKTGLELKSVSLEGSKRQVHKSSPAWKELQMMPQKDL 370
Cdd:pfam12346  79 HKTGLKLEKAFLEVNKPQVHKLDPSWKELQVTPQKYS 115
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 385-446 3.49e-23

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 93.18  E-value: 3.49e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  385 WLISPVKVVPRPRM-LPSQVEKWYREIKIKFDKLHQEYCLSSGKQPRLTDPTESWAVDVYRSG 446
Cdd:pfam12347   1 KLISPVKAISRPRTeLPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 527-585 5.89e-17

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 75.46  E-value: 5.89e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  527 KAVWPSTAISAPSIGSPGCGKDNYDELKKEFNRLYQKYCLS----PQRAKVTSCGRVSPMKAA 585
Cdd:pfam12347   1 KLISPVKAISRPRTELPGRGENRYREIKEEFDKLHQEYCLSspkqPPNTKMPVSVAVSNYRAG 63
 
Name Accession Description Interval E-value
HJURP_mid pfam12346
Holliday junction recognition protein-associated repeat; Vertebral Holliday junction ...
 254-370 2.34e-56

Holliday junction recognition protein-associated repeat; Vertebral Holliday junction recognition proteins carry an SCM3 domain at their N-terminus as do the eukaryotic fungi, but they also carry this central, conserved region. The function of this family is not known. Further downstream there is also a repeated domain, also of unknown function. Investigation of Scm3 and associated proteins is likely to be directly relevant to understanding the mechanism of HJURP-mediated CENP-A chromatin assembly at human centromeres.


Pssm-ID: 463542  Cd Length: 115  Bit Score: 186.91  E-value: 2.34e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 258613898  254 MSRLLRSKPSCIISTKTYINQSWKLRRRPsrKQGLHKNRTHCPRSKPSQRSARKGPASCSEPGKEAGILRDYGNLLHVAP 333
Cdd:pfam12346   1 MSRLLSAKPSCIISTKTFINQNWSSRRRH--RCKSRMNRTYCRGARPSQRSSRERPPPCSEPGKEAGVLRDCKNLLDVSC 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 258613898  334 HKTGLELKSVSLEGSKRQVHKSSPAWKELQMMPQKDL 370
Cdd:pfam12346  79 HKTGLKLEKAFLEVNKPQVHKLDPSWKELQVTPQKYS 115
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 385-446 3.49e-23

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 93.18  E-value: 3.49e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  385 WLISPVKVVPRPRM-LPSQVEKWYREIKIKFDKLHQEYCLSSGKQPRLTDPTESWAVDVYRSG 446
Cdd:pfam12347   1 KLISPVKAISRPRTeLPGRGENRYREIKEEFDKLHQEYCLSSPKQPPNTKMPVSVAVSNYRAG 63
HJURP_C pfam12347
Holliday junction regulator protein family C-terminal repeat; Although this family is ...
 527-585 5.89e-17

Holliday junction regulator protein family C-terminal repeat; Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, pfam10384, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes.


Pssm-ID: 463543  Cd Length: 63  Bit Score: 75.46  E-value: 5.89e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 258613898  527 KAVWPSTAISAPSIGSPGCGKDNYDELKKEFNRLYQKYCLS----PQRAKVTSCGRVSPMKAA 585
Cdd:pfam12347   1 KLISPVKAISRPRTELPGRGENRYREIKEEFDKLHQEYCLSspkqPPNTKMPVSVAVSNYRAG 63
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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